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論文リスト

doi title author source_title year
4253 10.1016/j.cell.2018.12.003 A Peninsular Structure Coordinates Asynchronous Differentiation With Morphogenesis To Generate Pancreatic Islets Sharon, Nadav; Chawla, Raghav; Mueller, Jonas; Vanderhooft, Jordan; Whitehorn, Luke James; Rosenthal, Benjamin; Gurtler, Mads; Estanboulieh, Ralph R.; Shvartsman, Dmitry; Gifford, David K.; Trapnell, Cole; Melton, Doug Cell 2019
4261 10.1016/j.cell.2019.01.006 Optimal-Transport Analysis Of Single-Cell Gene Expression Identifies Developmental Trajectories In Reprogramming Schiebinger, Geoffrey; Shu, Jian; Tabaka, Marcin; Cleary, Brian; Subramanian, Vidya; Solomon, Aryeh; Gould, Joshua; Liu, Siyan; Lin, Stacie; Berube, Peter; Lee, Lia; Chen, Jenny; Brumbaugh, Justin; Rigollet, Philippe; Hochedlinger, Konrad; Jaenisch, Rudolf; Regev, Aviv; Lander, Eric S. Cell 2019
9648 10.1016/j.stem.2018.04.014 Single-Cell Transcriptomics Meets Lineage Tracing Kester, Lennart; Van Oudenaarden, Alexander Cell Stem Cell 2018
9690 10.1016/j.stemcr.2018.12.012 Velazco-Cruz, Leonardo; Song, Jiwon; Maxwell, Kristina G.; Goedegebuure, Madeleine M.; Augsornworawat, Punn; Hogrebe, Nathaniel J.; Millman, Jeffrey R. Stem Cell Reports 2019
12571 10.1038/nbt.4103 Simultaneous Single-Cell Profiling Of Lineages And Cell Types In The Vertebrate Brain Raj, Bushra, 0000-0002-5833-0251; Wagner, Daniel E; Mckenna, Aaron, 0000-0001-8277-6512; Pandey, Shristi; Klein, Allon M, 0000-0001-8913-7879; Shendure, Jay, 0000-0002-1516-1865; Gagnon, James A, 0000-0003-3978-6058; Schier, Alexander F, 0000-0001-7645-5325 Nature Biotechnology 2018
12572 10.1038/nbt.4124 Simultaneous Lineage Tracing And Cell-Type Identification Using Crispr<U+2013>Cas9-Induced Genetic Scars Spanjaard, Bastiaan; Hu, Bo; Mitic, Nina; Olivares-Chauvet, Pedro; Janjuha, Sharan; Ninov, Nikolay; Junker, Jan Philipp, 0000-0002-2826-8290 Nature Biotechnology 2018
13011 10.1038/s41467-019-09404-6 Rosado-Olivieri, Edwin A., 0000-0003-4756-0956; Anderson, Kendall; Kenty, Jennifer H., 0000-0003-0974-9643; Melton, Douglas A., 0000-0002-1623-5504 Nature Communications 2019
13476 10.1038/s41556-018-0271-4 Nair, Gopika G.; Liu, Jennifer S.; Russ, Holger A.; Tran, Stella; Saxton, Michael S.; Chen, Richard; Juang, Charity; Li, Mei-Lan; Nguyen, Vinh Q.; Giacometti, Simone; Puri, Sapna; Xing, Yuan; Wang, Yong; Szot, Gregory L.; Oberholzer, Jose; Bhushan, Anil; Hebrok, Matthias, 0000-0002-3833-8862 Nature Cell Biology 2019
13971 10.1038/s41576-020-0223-2 Lineage Tracing Meets Single-Cell Omics: Opportunities And Challenges Wagner, Daniel E.; Klein, Allon M., 0000-0001-8913-7879 Nature Reviews Genetics 2020
14024 10.1038/s41580-019-0186-3 Unravelling Cellular Relationships During Development And Regeneration Using Genetic Lineage Tracing Baron, Chloe S.; Van Oudenaarden, Alexander, 0000-0002-9442-3551 Nature Reviews Molecular Cell Biology 2019
14077 10.1038/s41586-018-0414-6 Rna Velocity Of Single Cells La Manno, Gioele; Soldatov, Ruslan; Zeisel, Amit; Braun, Emelie; Hochgerner, Hannah; Petukhov, Viktor; Lidschreiber, Katja; Kastriti, Maria E.; Lonnerberg, Peter; Furlan, Alessandro; Fan, Jean; Borm, Lars E.; Liu, Zehua; Van Bruggen, David; Guo, Jimin; He, Xiaoling; Barker, Roger; Sundstrom, Erik; Castelo-Branco, Goncalo; Cramer, Patrick; Adameyko, Igor; Linnarsson, Sten; Kharchenko, Peter V. Nature 2018
14119 10.1038/s41586-018-0744-4 Single-Cell Mapping Of Lineage And Identity In Direct Reprogramming Biddy, Brent A.; Kong, Wenjun; Kamimoto, Kenji; Guo, Chuner; Waye, Sarah E.; Sun, Tao; Morris, Samantha A. Nature 2018
14122 10.1038/s41586-018-0762-2 Mechanosignalling Via Integrins Directs Fate Decisions Of Pancreatic Progenitors Mamidi, Anant; Prawiro, Christy; Seymour, Philip A.; De Lichtenberg, Kristian Honnens; Jackson, Abigail; Serup, Palle; Semb, Henrik Nature 2018
14147 10.1038/s41586-019-0933-9 A Single-Cell Molecular Map Of Mouse Gastrulation And Early Organogenesis Pijuan-Sala, Blanca; Griffiths, Jonathan A.; Guibentif, Carolina; Hiscock, Tom W.; Jawaid, Wajid; Calero-Nieto, Fernando J.; Mulas, Carla; Ibarra-Soria, Ximena; Tyser, Richard C. V.; Ho, Debbie Lee Lian; Reik, Wolf; Srinivas, Shankar; Simons, Benjamin D.; Nichols, Jennifer; Marioni, John C.; Gottgens, Berthold Nature 2019
14157 10.1038/s41586-019-0969-x The Single-Cell Transcriptional Landscape Of Mammalian Organogenesis Cao, Junyue; Spielmann, Malte; Qiu, Xiaojie; Huang, Xingfan; Ibrahim, Daniel M.; Hill, Andrew J.; Zhang, Fan; Mundlos, Stefan; Christiansen, Lena; Steemers, Frank J.; Trapnell, Cole; Shendure, Jay Nature 2019
14187 10.1038/s41586-019-1127-1 The Emergent Landscape Of The Mouse Gut Endoderm At Single-Cell Resolution Nature 2019
14199 10.1038/s41586-019-1168-5 Veres, Adrian; Faust, Aubrey L.; Bushnell, Henry L.; Engquist, Elise N.; Kenty, Jennifer Hyoje-Ryu; Harb, George; Poh, Yeh-Chuin; Sintov, Elad; Gurtler, Mads; Pagliuca, Felicia W.; Peterson, Quinn P.; Melton, Douglas A. Nature 2019
14202 10.1038/s41586-019-1184-5 Molecular Recording Of Mammalian Embryogenesis Chan, Michelle M.; Smith, Zachary D.; Grosswendt, Stefanie; Kretzmer, Helene; Norman, Thomas M.; Adamson, Britt; Jost, Marco; Quinn, Jeffrey J.; Yang, Dian; Jones, Matthew G.; Khodaverdian, Alex; Yosef, Nir; Meissner, Alexander; Weissman, Jonathan S. Nature 2019
14242 10.1038/s41586-019-1469-8 Molecular Architecture Of Lineage Allocation And Tissue Organization In Early Mouse Embryo Peng, Guangdun; Suo, Shengbao; Cui, Guizhong; Yu, Fang; Wang, Ran; Chen, Jun; Chen, Shirui; Liu, Zhiwen; Chen, Guoyu; Qian, Yun; Tam, Patrick P. L.; Han, Jing-Dong J.; Jing, Naihe Nature 2019
14497 10.1038/s41587-019-0071-9 A Comparison Of Single-Cell Trajectory Inference Methods Saelens, Wouter, 0000-0002-7114-6248; Cannoodt, Robrecht, 0000-0003-3641-729X; Todorov, Helena, 0000-0002-1594-8609; Saeys, Yvan, 0000-0002-0415-1506 Nature Biotechnology 2019
14500 10.1038/s41587-019-0088-0 Inferring Population Dynamics From Single-Cell Rna-Sequencing Time Series Data Fischer, David S., 0000-0002-1293-7656; Fiedler, Anna K.; Kernfeld, Eric M., 0000-0002-2310-8191; Genga, Ryan M. J.; Bastidas-Ponce, Aimee, 0000-0002-3117-3591; Bakhti, Mostafa, 0000-0002-2307-1122; Lickert, Heiko; Hasenauer, Jan, 0000-0002-4935-3312; Maehr, Rene, 0000-0002-9520-3382; Theis, Fabian J., 0000-0002-2419-1943 Nature Biotechnology 2019
14534 10.1038/s41587-020-0430-6 Targeting The Cytoskeleton To Direct Pancreatic Differentiation Of Human Pluripotent Stem Cells Hogrebe, Nathaniel J., 0000-0002-6282-2056; Augsornworawat, Punn, 0000-0001-8602-5433; Maxwell, Kristina G., 0000-0003-0869-1662; Velazco-Cruz, Leonardo; Millman, Jeffrey R., 0000-0003-0426-3492 Nature Biotechnology 2020
14548 10.1038/s41587-020-0591-3 Generalizing Rna Velocity To Transient Cell States Through Dynamical Modeling Bergen, Volker; Lange, Marius, 0000-0002-4846-1266; Peidli, Stefan, 0000-0002-4257-8690; Wolf, F. Alexander, 0000-0002-8760-7838; Theis, Fabian J., 0000-0002-2419-1943 Nature Biotechnology 2020
18737 10.1126/science.aar3131 Single-Cell Reconstruction Of Developmental Trajectories During Zebrafish Embryogenesis Farrell, Jeffrey A., 0000-0003-4774-1562; Wang, Yiqun, 0000-0001-6861-8761; Riesenfeld, Samantha J.; Shekhar, Karthik; Regev, Aviv, 0000-0003-3293-3158; Schier, Alexander F., 0000-0001-7645-5325 Science 2018
18741 10.1126/science.aar4362 Single-Cell Mapping Of Gene Expression Landscapes And Lineage In The Zebrafish Embryo Wagner, Daniel E., 0000-0002-2983-635X; Weinreb, Caleb; Collins, Zach M., 0000-0002-8943-7967; Briggs, James A.; Megason, Sean G., 0000-0002-9330-2934; Klein, Allon M., 0000-0001-8913-7879 Science 2018
18743 10.1126/science.aar5780 The Dynamics Of Gene Expression In Vertebrate Embryogenesis At Single-Cell Resolution Briggs, James A.; Weinreb, Caleb; Wagner, Daniel E., 0000-0002-2983-635X; Megason, Sean, 0000-0002-9330-2934; Peshkin, Leonid, 0000-0002-6420-848X; Kirschner, Marc W., 0000-0001-6540-6130; Klein, Allon M., 0000-0001-8913-7879 Science 2018
18800 10.1126/science.aat9804 Developmental Barcoding Of Whole Mouse Via Homing Crispr Kalhor, Reza, 0000-0002-5558-7545; Kalhor, Kian, 0000-0001-9416-3078; Mejia, Leo, 0000-0003-4383-8439; Leeper, Kathleen, 0000-0003-1728-9683; Graveline, Amanda, 0000-0002-2626-4093; Mali, Prashant; Church, George M., 0000-0002-0775-2913 Science 2018
18885 10.1126/science.aaw3381 Lineage Tracing On Transcriptional Landscapes Links State To Fate During Differentiation Weinreb, Caleb, 0000-0001-6100-6084; Rodriguez-Fraticelli, Alejo, 0000-0002-4017-8714; Camargo, Fernando D.; Klein, Allon M., 0000-0001-8913-7879 Science 2020
20007 10.1186/s12864-018-4772-0 Slingshot: Cell Lineage And Pseudotime Inference For Single-Cell Transcriptomics Street, Kelly; Risso, Davide; Fletcher, Russell B.; Das, Diya; Ngai, John; Yosef, Nir; Purdom, Elizabeth; Dudoit, Sandrine, 0000-0002-6069-8629 Bmc Genomics 2018
20409 10.1242/dev.169730 Recording Development With Single Cell Dynamic Lineage Tracing Mckenna, Aaron, 0000-0001-8277-6512; Gagnon, James A., 0000-0003-3978-6058 Development 2019
20410 10.1242/dev.170506 Concepts And Limitations For Learning Developmental Trajectories From Single Cell Genomics Tritschler, Sophie; Buttner, Maren; Fischer, David S.; Lange, Marius; Bergen, Volker; Lickert, Heiko, 0000-0002-4597-8825; Theis, Fabian J., 0000-0002-2419-1943 Development 2019
20412 10.1242/dev.173849 Massive Single-Cell Mrna Profiling Reveals A Detailed Roadmap For Pancreatic Endocrinogenesis Bastidas-Ponce, Aimee; Tritschler, Sophie; Dony, Leander; Scheibner, Katharina; Tarquis-Medina, Marta; Salinno, Ciro; Schirge, Silvia; Burtscher, Ingo; Bottcher, Anika; Theis, Fabian; Lickert, Heiko; Bakhti, Mostafa, 0000-0002-2307-1122 Development 2019
20629 10.15252/msb.20188746 Luecken, Malte D, 0000-0001-7464-7921; Theis, Fabian J, 0000-0002-2419-1943 Molecular Systems Biology 2019
21787 10.7554/elife.38519 Insulin Mutations Impair Beta-Cell Development In A Patient-Derived Ipsc Model Of Neonatal Diabetes Balboa, Diego, 0000-0002-4784-5452; Saarimaki-Vire, Jonna; Borshagovski, Daniel; Survila, Mantas; Lindholm, Paivi, 0000-0003-3022-5035; Galli, Emilia, 0000-0002-7419-611X; Eurola, Solja; Ustinov, Jarkko; Grym, Heli; Huopio, Hanna; Partanen, Juha; Wartiovaara, Kirmo; Otonkoski, Timo, 0000-0001-9190-2496 Elife 2018